SMTL ID : 7zbv.1

Crystal structure of the peptidase domain of collagenase G from Clostridium histolyticum in complex with a diphosphonate-based inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 7 residues within 4Å: Chain A: H.148, E.149, H.152, E.180, A.183, Y.232 Ligands: ITO.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.148, A:H.152, A:E.180

2 x ITO: [6,7-bis(chloranyl)-3-phosphono-quinoxalin-2-yl]phosphonic acid(Non-covalent)

ITO.2: 5 residues within 4Å: Chain A: R.191, S.302, D.303, D.304 Ligands: 144.3 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.303 ITO.4: 17 residues within 4Å: Chain A: N.117, G.118, G.119, L.120, F.128, F.140, E.144, L.145, H.148, E.149, H.152, E.180, E.184, R.198, I.201, Y.232 Ligands: ZN.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.140, A:L.145 Hydrogen bonds: A:G.118, A:E.149, A:E.149, A:E.149, A:Y.232

1 x 144: TRIS-HYDROXYMETHYL-METHYL-AMMONIUM(Non-covalent)

144.3: 13 residues within 4Å: Chain A: E.69, R.147, S.189, T.190, R.191, T.192, S.193, I.298, P.299, L.300, V.301, S.302 Ligands: ITO.2 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.69, A:R.191, A:I.298, A:L.300 Water bridges: A:T.190, A:S.193 Salt bridges: A:E.69

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 5 residues within 4Å: Chain A: E.123, A.156, V.160, G.162, L.163 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:A.156, A:V.160, A:G.162, H2O.2, H2O.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alhayek, A. et al., Discovery and Characterization of Synthesized and FDA-Approved Inhibitors of Clostridial and Bacillary Collagenases. J.Med.Chem. (2022)

Release Date

2022-11-09

Peptides

Collagenase ColG: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Collagenase ColG

Related Entries With Identical Sequence